Results 91 to 100 of about 31,734 (247)

Improved Variational Bayesian Phylogenetic Inference with Normalizing Flows

, 2020
Variational Bayesian phylogenetic inference (VBPI) provides a promising general variational framework for efficient estimation of phylogenetic posteriors. However, the current diagonal Lognormal branch length approximation would significantly restrict the quality of the approximating distributions. In this paper, we propose a new type of VBPI, VBPI-NF,
openaire   +3 more sources

Building phenotypic character matrices for phylogenetic inference: exploration of 35 years of practice

Biological Reviews, EarlyView.
ABSTRACT Recent methodological development in phylogenetic inference has focused predominantly on molecular data. However, renewed interest in other data types, particularly morphological data, has followed from the increased recognition of the power of total evidence and tip‐dating approaches, including fossil data, for inference of time‐scaled trees ...
Melanie J. Hopkins, Mark C. Nikolic, James D. Holmes, Daniela S. Monti, Ernesto E. Vargas‐Parra, Russell D.C. Bicknell, Gregory D. Edgecombe, Katherine Jordan‐Burmeister, John R. Paterson, Shravya Srivastava‐Losey   +9 more
wiley   +1 more source

Climatic niche divergence and high‐elevation adaptation promoted rapid diversification of Pimoa spiders in Pan‐Himalaya

Ecography, EarlyView.
The Pan‐Himalayan region harbors exceptional biodiversity, yet the origins and underlying mechanisms driving this remarkable diversity remain poorly understood, especially among species‐rich invertebrates. Pimoa spiders exhibit an intercontinental disjunct distribution across three major mountain regions: the Rockies, the Alps, and the Pan‐Himalaya ...
Xiaoqing Zhang, Zhe Zhao, Bingyue Zhu, Tongyao Jiang, Lili Shao, Stefano Mammola, Jiangni Li, Hao Xu, Bing Li, Shuqiang Li   +9 more
wiley   +1 more source

The complete mitochondrial genome of Atheraster arandae (Asteroidea: Valvatida: Goniasteridae) from the western Pacific

Mitochondrial DNA. Part B. Resources
This study presents the complete mitogenome sequence of Atheraster arandae, providing valuable information for its genetic and taxonomic research. Through next-generation sequencing, we successfully obtained the complete mitogenome of A.
Deming Kong, Ning Xiao, Xinzheng Li, Lixing Wang, Tianyue Peng   +4 more
doaj   +1 more source

Synergistic mechanisms foster declines in native fish community stability following the introduction of non‐native species

Ecography, EarlyView.
Non‐native species introductions profoundly alter freshwater communities, yet the mechanisms by which non‐native fishes affect native community stability remain unclear. Using a multi‐decadal dataset on fish community composition and abundance collected across France, we quantified native community stability and decomposed this metric into its main ...
Chengzong Tian, Mengzhen Xu, Congcong Wang, Wei Xin, Xiongdong Zhou, Jorge García‐Girón   +5 more
wiley   +1 more source

A New Phylogenetic Inference Based on Genetic Attribute Reduction for Morphological Data

Entropy, 2019
To address the instability of phylogenetic trees in morphological datasets caused by missing values, we present a phylogenetic inference method based on a concept decision tree (CDT) in conjunction with attribute reduction.
Jun Feng, Zeyun Liu, Hongwei Feng, Richard F. E. Sutcliffe, Jianni Liu, Jian Han   +5 more
doaj   +1 more source

Bayesian Phylogenetic Inference under a Statistical Insertion-Deletion Model

, 2003
A central problem in computational biology is the inference of phylogeny given a set of DNA or protein sequences. Currently, this problem is tackled stepwise, with phylogenetic reconstruction dependent on an initial multiple sequence alignment step. However these two steps are fundamentally interdependent.
Gerton Lunter, István Miklós, Alexei J. Drummond, Jens Ledet Jensen, Jotun Hein   +4 more
openaire   +3 more sources

Warm‐wet transition restructures arid lake microbiomes and functional potential

iMetaOmics, EarlyView.
This study summarizes how a long‐term warm‐dry to warm‐wet transition restructures microbiomes and functional potential in Lake Bosten, an arid lake in northwestern China. Warm‐wet hydroclimatic change increased water level and hydrological connectivity, while decreasing salinity and total nitrogen.
Zhen Shen, Xingchen Li, Zhijun Gong, Yang Hu, Yongjiu Cai, Keqiang Shao, Guang Gao, Robbie M. Martin, Xiangming Tang   +8 more
wiley   +1 more source

A comparison of methods for estimating substitution rates from ancient DNA sequence data

BMC Evolutionary Biology, 2018
Background Phylogenetic analysis of DNA from modern and ancient samples allows the reconstruction of important demographic and evolutionary processes. A critical component of these analyses is the estimation of evolutionary rates, which can be calibrated
K. Jun Tong, David A. Duchêne, Sebastián Duchêne, Jemma L. Geoghegan, Simon Y. W. Ho   +4 more
doaj   +1 more source

An Efficient Coalescent Epoch Model for Bayesian Phylogenetic Inference. [PDF]

Syst Biol, 2022
Bouckaert RR.
europepmc   +1 more source